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P C Cooley

Publications and source records attributed to P C Cooley.

7 recordsLinked to original sources
PubMed2006

Inconsistencies between human genetic cytolocations and those derived using genomic sequence.

One result of the publishing of the human genome sequence is the ability to define objects through their position on the consensus sequence. While this has simplified the process of creating order maps for genes on a chromosome, it has created discrepancies between the published cytolocations of human genes, as presented through genetic references, and those locations derived computationally from the genomic sequence. For the 6,830 records with HUGO gene symbols shared between the online version of Mendelian Inheritance in Man and Ensembl, 18% of the records have a discrepancy of at least one cytogenetic band between the datasets. Discordance between data sets at this frequency would have a significant impact on the utility of datasets created by the amalgamation of numerous biological databases.

Base Sequence↗
PubMed1996

Estimating the prevalence of drug use from self-reports in a cohort for which biologic data are available for a subsample.

Diagnostic procedures, used singly or in combination, are crucial in the determination of the presence and prevalence of medical and other conditions. In the absence of a "gold standard," two or more measures or diagnostic tests are often available that may be used to estimate true prevalence. The authors have developed a statistical method with which to calculate more precise estimates of a condition in the presence of two diagnostic measures, one measurement being performed on the entire study sample and a second, more precise one being made in a random sample of the study sample. This method uses the well-known equations which express the probabilities of the four possible outcomes of the two measures in terms of the sensitivities and specificities of the measures and the prevalence of the condition and some properties of maximum likelihood estimates to obtain an expression for the estimated true prevalence and its precision. The method is illustrated by applying it to data collected by urinalysis and self-report in 1992-1993 in a national multisite study-the Cocaine Treatment Outcome Study. Through application of this methodology, a more precise estimate of the true prevalence of substance use can be obtained from two measures, one biologic and the other self-reported. Detailed equations and expressions are provided so that the method can be applied in other situations where diagnostic data from two different sources or procedures are available.

Bias↗
PubMed1996

A meta-analysis of estimates of the AIDS incubation distribution.

Information from 12 studies is combined to estimate the AIDS incubation distribution with greater precision than is possible from a single study. The analysis uses a hierarchy of parametric models based on a four-parameter generalized F distribution. This general model contains four standard two-parameter distributions as special cases. The cases are the Weibull, gamma, log-logistic, lognormal distributions. These four special cases subsume three distinct asymptotic hazard behaviors. As time increases beyond the median of approximately 10 years, the hazard can increase to infinity (Weibull), can plateau at some constant level (gamma), or can decrease to zero (log-logistic and lognormal). The Weibull, gamma and 'log-logistic distributions' which represent the three distinct asymptotic hazard behaviors, all fit the data as well as the generalized F distribution at the 25 percent significance level. Hence, we conclude that incubation data is still too limited to ascertain the specific hazard assumption that should be utilized in studies of the AIDS epidemic. Accordingly, efforts to model the AIDS epidemic (e.g., back-calculation approaches) should allow the incubation distribution to take several forms to adequately represent HIV estimation uncertainty. It is recommended that, at a minimum, the specific Weibull, gamma and log-logistic distributions estimated in this meta-analysis should all be used in modeling the AIDS epidemic, to reflect this uncertainty.

Acquired Immunodeficiency Syndrome↗
PubMed1993

The assumption of no long reporting delays may result in underestimates of US AIDS incidence.

OBJECTIVE: To evaluate the effect of the assumption of no long reporting delays on estimates of AIDS incidence. DESIGN: Reported AIDS cases must be adjusted for reporting delays to estimate AIDS incidence. We compared the adjustments supplied with the Centers for Disease Control and Prevention (CDC) AIDS Public Information Data Set with a set of adjustments that differ with respect to CDC assumption of no long delays. Both methods assume that no changes in delay have occurred throughout the reporting period. METHODS: Probability distributions of reporting delays were calculated from the delay adjustment weights supplied by CDC, and from an alternative method that estimates the probability of long delays from the surveillance data. AIDS incidence estimates from these two approaches were calculated and compared. RESULTS: The CDC adjustments assume that there will be no reporting delays longer than 61 months, whereas the alternative method estimates that 5.9% of case reports will be delayed longer than 61 months. The CDC adjustments result in lower estimates of AIDS incidence and a flattening of the epidemic. CONCLUSIONS: In addition to a 6.2% reduction in total estimated AIDS incidence, the CDC assumption changes the shape of the estimated epidemic. These may result in as much as 4-21% reductions in model estimates of HIV incidence and prevalence.

Acquired Immunodeficiency Syndrome↗
PubMed1977

A computer program for multiple decrement life table analyses.

Life table analysis has traditionally been the tool of choice in analyzing distribution of "survival" times when a parametric form for the survival curve could not be reasonably assumed. Chiang, in two papers [1,2] formalized the theory of life table analyses in a Markov chain framework and derived maximum likelihood estimates of the relevant parameters for the analyses. He also discussed how the techniques could be generalized to consider competing risks and follow-up studies. Although various computer programs exist for doing different types of life table analysis [3] to date, there has not been a generally available, well documented computer program to carry out multiple decrement analyses, either by Chiang's or any other method. This paper describes such a program developed by Research Triangle Institute. A user's manual is available at printing costs which supplements the contents of this paper with a discussion of the formula used in the program listing.

Computers↗
PubMedDate not supplied

The impact of T-ACASI interviewing on reported drug use among men who have sex with men.

Measurements of drug use and other illicit or stigmatized behaviors are subject to nontrivial underreporting biases. During in-person surveys, respondents are more likely to report such behaviors when interviewed using techniques that maximize interviewee privacy, e.g., use of paper SAQs and audio-CASI rather than questioning by human interviewers. Until recently, respondents in telephone surveys could not be offered similar privacy. A new technology, telephone audio computer-assisted self-interviewing (T-ACASI) overcomes this limitation of telephone surveys by allowing respondents to respond to a computer. A randomized experimental test of T-ACASI was embedded in the Urban Men's Health Study (UMHS). UMHS surveyed a probability sample of 2,881 men from four United States cities and who reported having sex with men. Respondents interviewed using T-ACASI reported a higher prevalence of drug use and drug-related behaviors than respondents interviewed by human interviewers. However, survey respondents were more likely to break off an interview when the interview was conducted by a T-ACASI computer rather than by a human interviewer.

Adolescent↗